RnoINT0094023 @ rn6
Intron Retention
Gene
ENSRNOG00000003522 | Mr1
Description
major histocompatibility complex, class I-related [Source:RGD Symbol;Acc:1593291]
Coordinates
chr13:72775422-72779981:-
Coord C1 exon
chr13:72779706-72779981
Coord A exon
chr13:72775698-72779705
Coord C2 exon
chr13:72775422-72775697
Length
4008 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CTGTGGTTGCTTCTCTCTAGAAC
3' ss Score
9.04
Exon sequences
Seq C1 exon
GGCTTCACACCTACCAGAGAATGATCGGTTGTGAGTTGCTGGAAGACGGCAGCACCACAGGGTTTCTCCAGTATGCATATGATGGACAAGATTTCATTGTCTTCGATAAAGACACCCTCTCCTGGCTGGCTATGGATAATGTGGCTCACATCACCAAGCGAGCATGGGAGGCCAACCTGCATGAGTTGCAATACCAAAAGAACTGGCTAGAAGAAGAGTGCATTGCCTGGCTAAAGAGGTTCTTGGAGTATGGAAGTGATGCCCTAGAAAGAACAG
Seq A exon
GTAATGGGCAGAGAGAGCACCTCGTTCTTAACATCCTTTAAAAAACACTGGCTCTGTGTCTAACTTCCTCTTCTGCAGGTGATATTCACCCTGTGCTGAAATCCGTCTCTTGGTTGGACTGTTCTGACCTGTAACCCCCCAAGAGAACTCTCATTAGTTATATTTTTAGCAGCATCTTGACAGGCCTTAGCAGTTCCACTTGTCTTGACAGAATGTAGTGCCTCCAAGGGCATCTCTATGGAAAAAAGTCCTCTCCTGTCAGTGAGAGGCCGGGAAAAGCTTCTGGAAGTGGGGCTGTTGCTGCAGATTATTTAAGAAGCAAGGGTTCATAGAATCCCTGTGTGAGTGCAAAGCTGGCCCTATGAAGAAGAGCCTTGGGAAGACAGGTTTTTCCTTACTTGAGGATTAATTCTTCCATTCTTCTGGGAACAGAGTTTATCTTCTGCCATAAAGGGATGATCCCATTGGTCAACTTCAGCAGCGTGTAGAACGGTGCATGTTGGATTGGATGATTCAGAATGTTTCAGGAAATCCCTGAATGCTACAGACCCTTTCTCACCCGAGTAATGGCCAGTCTGGGGGACTTTCTAGAGATGTGGCAAGCCCCAGATTGGGAAGAAGGGTGTGGACTGTGGTTATAAACGTGTGCTGCCCTTCTGGGTGGTGGTAGCTCCTGCCTTTAGACTCAGCACTCAAGAGGCAGAGGCGGTTGGATCTCTGTGAGTTTGAGGCCAACCTGATCTGTAGACTGAGTTCTACCACAGCCAGGGCCACACGGAGAAACCTGGTCTCCAAACAAAACAAAACAAACAAGATAACCATTGCTATCTGGCTAAAATGTCCAGGTTTTGGAGGCAGATGACAAGAGTCATCTTCCCTAGGAGCAGAATAACTACAATGGGCTCAATGGTTGCAGTTGACAAACCCATTTCAAACAGGTTCACGTCCTATTTGAAAACAAGAATCAGAGCAGCACAGGGACCTAAGAAACCACAACCAATCCTTGAATGCCGTTCTCCAGGGTGGTGGTGGGGTAGCTGAAGCTAAGAGCACAAATCTTACACCCTCACGGCTTCTCCATTCCACAAAACAGGTTACTACCGTCTCTGAGTACTTATTGCCTAAATAAATAAATCTCAAGAGAACTGGCCTGAGTCGGATGCATGTGGCCTCGTTAGCTAATCGCTGTGAACATCATCGGGAAAGACTTCAAAGATTAACAGCGGGTAACAAAGTTCTGGCAGGAACACAGCCAAAATGGTCTCATTTAGGAGATTCACCCAGGGCTCCTTTACACGGGGTCGTGACATGTCTGACCGAGTGCAGCATGGAAACGCCACTGCTCTAGCTTGATCCGAGGGGCAGGAAGAGGGGGCATCCACTAGTAGAGCCCTGCAAGAGTTGGTGGGGCTGAAAGAAGGTCCTGGCTCCCGGGAGGTGTGGCAGCAGAGGAACATGCCCAGGGCAAGACTGCCTGTGCATTGAGATTGGTACTTTCGTCAGCTCACTGCTCTCTGGCTGAGGCTGTCCAGCTGGGAACCAGGAACAGAGAAGCTAGAGTTACTGTGTGAAGGCCTAGACAGATCACAGAAGGTCAGAGACCGGATCCAGGGGCTAACACGGAGCCACAAACTGTCCCGCACCGGATGCAGGGACTACCCCAGCCGTTCCGCACTGAGTGACGGTTGTAGGGGAGGAATTAGGATGAGTACCTCACAGGAGCCCGTGTTCCAGAGAGTTCTGGTAATGTCTCAAAATACGATGTTGTTTGGCAGCAGAAGGAGCCTCTCCTGTCAGGAAAAAGTGAAGCTTCTGGAAAGTCGGTCAGCAAAGCCCCAGTCTCAAGTAATAGAATGTTGCCTTCTTTCCAGGAAGTATGGAAGATCACCGGTGTGCCCGAAAATGCTTGCTAAGCCTTAGGGCTCTGCTCTCATATTGAGTGTGACTGTCGCCTGACTGAAGAACGTCTGGTAACCTAAGATCTGGTTAAATTCTATCACAGATCTTGGCTGCCCTAAATCACTAAGGATGTTTTAGGCTGAGTCTCAGCAGATAGGAAAAGGGTGTTTACTCTCTGACTGGGGTATGTTTGCCACACAGCTGGGTTGGTTATTTTCCTCTTTGCTGTGAAAGAATGCCTGAAACAATGTAACCTAAGAGCAGGGAAGACTAGTCACAGTTTCAGACGTTTGGAGGCATCCTGGTGGGAAGTGTGTGGTGAAGCAGTTGACTTCTCCGTTGTGAGGAAGCAGAAGGATGGAGGAAGAAGCCAGGGACAAGATACAACCTCCAGGGATTCGACACAGTGACCTGATTCCTTTAGCTTGACCCCACCTCCTAGAGTTTAACTCTCAAAATAACACTAACATTTAGAAAGCCTGGATTTAACACATAATCCTGTGAGGGACTTTTAGATTAAAAGCACATCAATAGCATCAGGAGTTGCCTGGCCTGCTGCTTGTCTGAATACAGTTCTGAGCAAAGGTAGGAAAACTCAAGCCCAGGTGCTAAGAATTGAGATTTAGAGGTTACCAACGAATTCTATTGGTTCCACTTGGAGCAGAAGCTCTTGGAATCAACCAGGAGGAACCTGGGCTGTGTAGGAAGGGTGTGGAAGGTTTGACTCAGGTGCACGTAGTGTATGTACGTGTAGTTCTCATTCCCTGTCTTGAGTGTCATAATGGTGTCGACCTTTTGGTCAAAACCCATGTCTTGGGAGATAGATTCATTTCTTGCAGGTATAGTTAAGAAAATAGTAATAAAATAAAAATAAATAAAAATTAAAAGTATCTCTTGGCAATGTTTTATTTTAAATGTTGGAAAGTCTTTTCCTACAACTAAATTCCATGCCTCAGGTGAGAGACAAGGAAGGTTTGTCTGAGATGGAGGCTCTTCCCTATATCCACAAATGTCAGACACTGAGGTAGAGATGAGGAAGGAAATCTCACAGATGACCAGGAAGGTCCTCCAGACAGTGTGCTTGGTTTCAGTTTGGCTTTATGACCAGTTTCAGCTGGAAAGGTTAAGATAACACCATATGGAAAATGGACACGTGATGTCATGAGGCAGTAAGATCAGCAGTGGTGACTGGTGGTGAGTAGGCTGAGCATAGTGGTACCCATCTGTAATCCTAACATTTGGGAGGCTGAGGGAGGAGCGCCTCAAGTTCATCCTGGGGCATAGAGAGATGATGTCTCCTCTCTCTGTCTCTGCCTCTGTCTCTGTCTCTGTCTCTCTCATCACTGTTACAGCTCTTCTGTATCATTAATTTCTGTAGCTTCTTTGAGGGCACATGGAACGACAATGTGTGCTTGTATTTGATTATAACCACCAGAATACTACTCTGATAGCCTGGGGTAATCCAGAGCTCCCGTTGGCCTGAATTGGCTGTGTGTTTTTATTGTCAGTAAGTGCAGAATTGAGATCTGTTGCATTCTAATCTCCAATCTCTAGGTGAATTACTTATCAAGAACAATCATTTACATATTTTGTGACTTACTTTTCCTTAACACATATGCGTATTTGTTTTGTTTTGTTGTTTTATATGCATTGGTGGTCTGCCTCTATGTCTGTGTGAGAGTGTTGGATCCTCTGGAACTAGATGGAGTTAACAGACAACTGTGAGCTACCATGTGGGTGCTGGGAATTGGACCCGGGTACTCTGAACAATCAGACAGAGCTCTTAACCACTGCACCATCTCTCCAGCCCCCACATAAGGGTATTTCAAAGGTGAACAGTAAGCAACTTCAATACACTTTCCAAGTACTTGATGCTAATGCCTTTTTTCCCCTTAGAGGACGAAAGTGCCTCAGCTGCACGTATCCTTGCCTGTGGCACAGGAGGAAAGCTGCAAAATCCAGTTTGTTGCTGATGAATCTGGGTTCTGGTTCATTCTCAGCTTTAGATATTTCTTGCAGCAAAGAAAATTAACTGGAAAACTCTGCGTTTGAACACGGTAAGTTCAGTACCCAAGACCCTTCCGATTAACTGTGGTTGCTTCTCTCTAG
Seq C2 exon
AACATCCAGTAGTAAGAACAACTCGAAAGGAAACGTTTCCAGGGATTACCACTCTCTTCTGCAGAGCTCATGGCTTCTACCCACCAGAAATTTCCATGATATGGAAGAAAAATGGGGAAGAAATTGTCCAGGAGGTGGATTATGGAGGGGTGCTTCCCAGTGGGGATGGAACCTATCAAATGTGGGTGTCGGTTGATCTGGATCCTCAGACCAAAGACATTTATTCTTGTCATGTGGAGCACTGTGGTCTCCAAATGGTTCTGGAGGCCCCTCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003522:ENSRNOT00000004694:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.007 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(50.0=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=89.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]